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Commit ee9ad5c5 authored by pkupczyk's avatar pkupczyk
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SSDM-1286 : QGF: Setup of automatic testing of dropboxes - allow to initialize... 

SSDM-1286 : QGF: Setup of automatic testing of dropboxes - allow to initialize a test data base from a single file dump

SVN: 33038
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datastore_server/sourceTest/java/ch/systemsx/cisd/openbis/datastoreserver/systemtests/GenericSystemTest.java
+ 0
− 22
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......@@ -16,10 +16,7 @@
package ch.systemsx.cisd.openbis.datastoreserver.systemtests;
import org.testng.annotations.BeforeSuite;
import ch.systemsx.cisd.openbis.generic.server.api.v1.ResourceNames;
import ch.systemsx.cisd.openbis.generic.server.util.TestInitializer;
import ch.systemsx.cisd.openbis.generic.shared.api.v1.IGeneralInformationService;
/**
......@@ -28,25 +25,6 @@ import ch.systemsx.cisd.openbis.generic.shared.api.v1.IGeneralInformationService
public class GenericSystemTest extends SystemTestCase
{
protected String getDBScriptFolder()
{
return "sourceTest";
}
protected String getDBKind()
{
return "test";
}
@Override
@BeforeSuite
public void beforeSuite() throws Exception
{
System.setProperty(TestInitializer.getScriptFolderTestDBPropertyName(), getDBScriptFolder());
System.setProperty(TestInitializer.getDBKindPropertyName(), getDBKind());
super.beforeSuite();
}
protected IGeneralInformationService getGeneralInformationService()
{
return getBean(ResourceNames.GENERAL_INFORMATION_SERVICE_SERVER);
......
deep_sequencing_unit/resource/test-db/openbis_test_demo.sql 0 → 100644
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deep_sequencing_unit/sourceTest/core-plugins/demo/1/dss/drop-boxes/demo-dropbox/demo-dropbox.py
+ 1
− 2
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......@@ -8,8 +8,7 @@ def process(tr):
openFile = open(file.getAbsolutePath())
content = openFile.read().strip()
experiment = tr.createNewExperiment("/CISD/DEFAULT/" + content, "SIRNA_HCS")
experiment.setPropertyValue("DESCRIPTION", "some description")
experiment = tr.createNewExperiment("/TEST/TEST-PROJECT/" + content, "UNKNOWN")
finally:
if openFile:
openFile.close()
deep_sequencing_unit/sourceTest/java/ch/ethz/bsse/cisd/dsu/dss/systemtests/DSUDropboxSystemTest.java
+ 6
− 2
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......@@ -16,6 +16,8 @@
package ch.ethz.bsse.cisd.dsu.dss.systemtests;
import org.testng.annotations.BeforeSuite;
import ch.systemsx.cisd.openbis.datastoreserver.systemtests.GenericDropboxSystemTest;
/**
......@@ -25,9 +27,11 @@ public abstract class DSUDropboxSystemTest extends GenericDropboxSystemTest
{
@Override
protected String getDBKind()
@BeforeSuite
public void beforeSuite() throws Exception
{
return DSUContants.DB_KIND;
DSUTestInitializer.init();
super.beforeSuite();
}
}
deep_sequencing_unit/sourceTest/java/ch/ethz/bsse/cisd/dsu/dss/systemtests/DSUSystemTest.java
+ 6
− 2
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......@@ -16,6 +16,8 @@
package ch.ethz.bsse.cisd.dsu.dss.systemtests;
import org.testng.annotations.BeforeSuite;
import ch.systemsx.cisd.openbis.datastoreserver.systemtests.GenericSystemTest;
/**
......@@ -25,9 +27,11 @@ public class DSUSystemTest extends GenericSystemTest
{
@Override
protected String getDBKind()
@BeforeSuite
public void beforeSuite() throws Exception
{
return DSUContants.DB_KIND;
DSUTestInitializer.init();
super.beforeSuite();
}
}
deep_sequencing_unit/sourceTest/java/ch/ethz/bsse/cisd/dsu/dss/systemtests/DSUContants.java → deep_sequencing_unit/sourceTest/java/ch/ethz/bsse/cisd/dsu/dss/systemtests/DSUTestInitializer.java
+ 71
− 0
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......@@ -16,12 +16,56 @@
package ch.ethz.bsse.cisd.dsu.dss.systemtests;
import java.io.File;
import ch.systemsx.cisd.openbis.generic.server.util.TestInitializer;
import ch.systemsx.cisd.openbis.test.server.TestDatabase;
/**
* @author pkupczyk
*/
public class DSUContants
public class DSUTestInitializer
{
public static final String DB_KIND = "test_deep_sequencing_unit";
private static String dbKind = "test_demo";
public static void setDbKind(String dbKind)
{
DSUTestInitializer.dbKind = dbKind;
}
private static String getDBKind()
{
return dbKind;
}
private static String getDBKindForIndexing()
{
return getDBKind() + "_indexing";
}
private static String getDBName()
{
return "openbis_" + getDBKind();
}
private static String getDBNameForIndexing()
{
return "openbis_" + getDBKindForIndexing();
}
public static void init()
{
File dumpFile = new File("resource/test-db/" + getDBName() + ".sql");
TestDatabase.restoreDump(dumpFile, getDBName());
TestDatabase.restoreDump(dumpFile, getDBNameForIndexing());
TestInitializer.setScriptFolderForEmptyDB("../openbis/source");
TestInitializer.setScriptFolderForTestDB("../openbis/source");
TestInitializer.setDBKind(getDBKind());
TestInitializer.setDBKindForIndexing(getDBKindForIndexing());
TestInitializer.setCreateDBFromScratch(false);
}
}
deep_sequencing_unit/sourceTest/java/ch/ethz/bsse/cisd/dsu/dss/systemtests/DemoDropboxTest.java
+ 9
− 1
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......@@ -52,13 +52,21 @@ public class DemoDropboxTest extends DSUDropboxSystemTest
waitUntilDataImported();
waitUntilDataReindexed(ExperimentPE.class);
String sessionToken = getGeneralInformationService().tryToAuthenticateForAllServices("test", "password");
String sessionToken = getGeneralInformationService().tryToAuthenticateForAllServices("admin", "password");
// check that the new created experiments are there
SearchCriteria criteria = new SearchCriteria();
criteria.addMatchClause(MatchClause.createAttributeMatch(MatchClauseAttribute.CODE, "DEMO-EXPERIMENT*"));
List<Experiment> experiments = getGeneralInformationService().searchForExperiments(sessionToken, criteria);
Assert.assertEquals(experiments.size(), 2);
// check that an old experiment can also be found (i.e. Lucene index works fine)
criteria = new SearchCriteria();
criteria.addMatchClause(MatchClause.createAttributeMatch(MatchClauseAttribute.PERM_ID, "20130415091745099-401"));
experiments = getGeneralInformationService().searchForExperiments(sessionToken, criteria);
Assert.assertEquals(experiments.size(), 1);
}
}
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deep_sequencing_unit/sourceTest/sql/postgresql/143/.DUMP deleted 100644 → 0
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deep_sequencing_unit/sourceTest/sql/postgresql/143/001=attachment_contents.tsv deleted 100644 → 0
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5 \\x636f646509555345522e6465736372697074696f6e0973747564795f4f626a6563740973747564795f6f626a6563745f547970650970726f6a6563740970726f63657373696e675f696e737472756374696f6e730963656c6c5f706c617465730a4558503509412073696d706c65206578706572696d656e7409564952555331095649525553095959093e2070726f63657373696e672d696e737472756374696f6e732e747874093e2063656c6c506c617465732e7478740a4558503609616e6f74686572206578706572696d656e7409564952555331095649525553096b6f
6 \\x33564350310a33564350320a3356435033
7 \\x616c610a6d610a6b6f74610a610a6b6f740a6a6573740a6964696f7461
8 \\x33564350310a33564350320a3356435033
9 \\x33564350310a33564350320a3356435033
deep_sequencing_unit/sourceTest/sql/postgresql/143/002=attachments.tsv deleted 100644 → 0
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1 2 exampleExperiments.txt 2008-12-10 13:48:17.996703+01 1 2 1 \N \N \N \N
2 2 exampleExperiments.txt 2008-12-10 13:49:14.564025+01 2 2 2 \N \N \N \N
3 2 exampleExperiments.txt 2008-12-10 13:49:20.23603+01 3 2 3 \N \N \N \N
4 2 exampleExperiments.txt 2008-12-10 13:49:27.90141+01 4 2 4 \N \N \N \N
5 8 exampleExperiments.txt 2008-12-10 13:49:48.879301+01 1 2 5 \N \N \N \N
6 8 cellPlates.txt 2008-12-10 13:51:10.050748+01 1 2 6 \N \N \N \N
7 \N sampleHistory.txt 2009-06-09 17:00:00+02 1 2 7 987 \N \N \N
8 22 cellPlates.txt 2008-12-10 13:51:10.050748+01 1 2 8 \N \N \N \N
9 \N projectDescription.txt 2012-01-03 08:27:57.123+01 1 2 9 \N 3 The Project All about it.
deep_sequencing_unit/sourceTest/sql/postgresql/143/004=authorization_groups.tsv deleted 100644 → 0
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1 AGROUP myDescription 2008-11-05 09:18:10.893+01 2 2008-11-05 09:18:10.893+01
deep_sequencing_unit/sourceTest/sql/postgresql/143/005=controlled_vocabularies.tsv deleted 100644 → 0
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1 PLATE_GEOMETRY The geometry or dimensions of a plate 2008-11-05 09:18:00.622+01 1 t t 2009-03-23 15:34:44.462776+01 t \N
2 STORAGE_FORMAT The on-disk storage format of a data set 2008-11-05 09:18:00.622+01 1 t t 2009-03-23 15:34:44.462776+01 t \N
3 ORGANISM available-organism 2008-11-05 09:18:30.327+01 2 f f 2009-03-23 15:34:44.462776+01 t \N
4 GENDER \N 2008-11-05 09:18:30.421+01 2 f f 2009-03-23 15:34:44.462776+01 t \N
5 HUMAN Humans 2008-11-05 09:18:30.983+01 2 f f 2009-03-23 15:34:44.462776+01 t \N
6 TEST_VOCABULARY Test vocabulary 2008-11-05 09:18:30.983+01 2 f f 2009-03-23 15:34:44.462776+01 t \N
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1 96_WELLS_8X12 2008-11-05 09:18:00.622+01 1 1 \N \N 1 t
2 384_WELLS_16X24 2008-11-05 09:18:00.622+01 1 1 \N \N 2 t
3 1536_WELLS_32X48 2008-11-05 09:18:00.622+01 1 1 \N \N 3 t
4 PROPRIETARY 2008-11-05 09:18:00.622+01 2 1 \N \N 1 t
5 BDS_DIRECTORY 2008-11-05 09:18:00.622+01 2 1 \N \N 2 t
6 RAT 2008-11-05 09:18:30.327+01 3 2 \N the rat 1 t
7 DOG 2008-11-05 09:18:30.327+01 3 2 \N doggy 2 t
8 HUMAN 2008-11-05 09:18:30.327+01 3 2 \N a human 3 t
9 GORILLA 2008-11-05 09:18:30.327+01 3 2 \N a gorilla is a gorilla 4 t
10 FLY 2008-11-05 09:18:30.327+01 3 2 \N a fly flies 5 t
11 MALE 2008-11-05 09:18:30.421+01 4 2 \N \N 1 t
12 FEMALE 2008-11-05 09:18:30.421+01 4 2 \N \N 2 t
13 MAN 2008-11-05 09:18:30.983+01 5 2 \N \N 1 t
14 WOMAN 2008-11-05 09:18:30.983+01 5 2 \N \N 2 t
15 CHILD 2008-11-05 09:18:31.061+01 5 2 \N \N 3 t
16 TEST_TERM_A 2008-11-05 09:18:31.061+01 6 2 \N \N 1 t
17 TEST_TERM_B 2008-11-05 09:18:31.061+01 6 2 \N \N 2 t
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2 20081105092158673-1 2 \N 2008-11-05 09:21:58.688+01 2008-11-05 09:21:58.798+01 f t 2009-03-23 15:34:44.462776+01 2 1 f 982 \N 1 \N 0 \N 2011-04-01 09:56:25.410678+02
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5 20081105092159111-1 2 \N 2008-11-05 09:21:59.203+01 2009-02-09 12:20:21.646654+01 f t 2009-03-23 15:34:44.462776+01 18 1 f 1042 \N \N \N 0 \N 2011-04-01 09:56:25.410678+02
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7 20081105092159333-3 2 \N 2008-11-05 09:21:59.203+01 2009-02-09 12:21:47.815468+01 f t 2009-03-23 15:34:44.462776+01 20 1 f 1044 \N \N \N 0 \N 2011-04-01 09:56:25.410678+02
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18 20081105092259000-18 2 \N 2008-11-05 09:22:59.203+01 2008-11-05 09:22:59.313+01 f t 2009-03-23 15:34:44.462776+01 8 1 t \N \N \N \N 0 \N 2014-04-01 09:56:25.410678+02
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26 VALIDATIONS_CNTNR-26 6 \N 2008-11-05 09:22:59.203+01 2008-11-05 09:22:59.313+01 f t 2009-03-23 15:34:44.462776+01 23 1 t \N 2 \N \N 0 \N 2014-04-01 09:56:25.410678+02
27 VALIDATIONS_IMPOS-27 7 \N 2008-11-05 09:22:59.203+01 2008-11-05 09:22:59.313+01 f t 2009-03-23 15:34:44.462776+01 23 1 t \N 2 \N \N 0 \N 2014-04-01 09:56:25.410678+02
28 VALIDATIONS_PARENT-28 8 \N 2008-11-05 09:22:59.203+01 2008-11-05 09:22:59.313+01 f t 2009-03-23 15:34:44.462776+01 23 1 t \N 2 \N \N 0 \N 2014-04-01 09:56:25.410678+02
29 ROOT_CONTAINER 4 \N 2011-05-09 10:22:59.203+02 2011-05-09 10:22:59.313+02 f t 2011-05-09 16:34:44.462776+02 8 1 t \N \N \N \N 0 \N 2014-04-01 09:56:25.410678+02
30 CONTAINER_1 4 \N 2011-05-09 10:22:59.203+02 2011-05-09 10:22:59.313+02 f t 2011-05-09 16:34:44.462776+02 8 1 t \N \N \N \N 0 \N 2014-04-01 09:56:25.410678+02
31 CONTAINER_2 4 \N 2011-05-09 10:22:59.203+02 2011-05-09 10:22:59.313+02 f t 2011-05-09 16:34:44.462776+02 8 1 t \N \N \N \N 0 \N 2014-04-01 09:56:25.410678+02
32 COMPONENT_1A 2 \N 2011-05-09 10:22:59.203+02 2011-05-09 10:22:59.313+02 f t 2011-05-09 16:34:44.462776+02 8 1 t \N \N \N \N 0 \N 2014-04-01 09:56:25.410678+02
33 COMPONENT_2A 2 \N 2011-05-09 10:22:59.203+02 2011-05-09 10:22:59.313+02 f t 2011-05-09 16:34:44.462776+02 8 1 t \N \N \N \N 0 \N 2014-04-01 09:56:25.410678+02
34 COMPONENT_1B 2 \N 2011-05-09 10:22:59.203+02 2011-05-09 10:22:59.313+02 f t 2011-05-09 16:34:44.462776+02 8 1 t \N \N \N \N 0 \N 2014-04-01 09:56:25.410678+02
35 DATASET-TO-DELETE 1 \N 2008-11-05 09:22:59.203+01 2008-11-05 09:22:59.313+01 f t 2009-03-23 15:34:44.462776+01 23 1 t \N 2 \N \N 0 \N 2014-04-01 09:56:25.410678+02
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5 7 1 no comment \N \N 2 2009-04-24 14:45:06.348563+02 2009-04-24 14:45:07.091+02 1
6 8 1 no comment \N \N 2 2009-04-24 14:45:06.348563+02 2009-04-24 14:45:07.091+02 1
7 9 1 no comment \N \N 2 2009-04-24 14:45:06.348563+02 2009-04-24 14:45:07.091+02 1
8 10 1 no comment \N \N 2 2009-04-24 14:45:06.348563+02 2009-04-24 14:45:07.091+02 1
9 11 1 no comment \N \N 2 2009-04-24 14:45:06.348563+02 2009-04-24 14:45:07.091+02 1
10 12 1 no comment \N \N 2 2009-04-24 14:45:06.348563+02 2009-04-24 14:45:07.091+02 1
11 14 1 non-virtual comment \N \N 2 2009-04-24 14:45:06.348563+02 2009-04-24 14:45:07.091+02 1
12 15 1 non-virtual comment \N \N 2 2009-04-24 14:45:06.348563+02 2009-04-24 14:45:07.091+02 1
13 5 4 \N 12 \N 2 2009-09-15 08:45:48.059548+02 2009-09-15 08:45:48.639+02 1
14 5 3 \N \N 22 2 2009-09-15 08:45:48.059548+02 2009-09-15 08:45:48.64+02 1
15 5 2 \N \N 2498 2 2009-09-15 08:45:48.059548+02 2009-09-15 08:45:48.64+02 1
19 17 1 no comment \N \N 2 2009-04-24 14:45:06.348563+02 2009-04-24 14:45:07.091+02 1
20 18 1 no comment \N \N 2 2009-04-24 14:45:06.348563+02 2009-04-24 14:45:07.091+02 1
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7 8 \N \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
5 9 \N \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
6 9 \N \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
7 9 \N \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
9 10 \N \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
9 11 \N \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
10 12 \N \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
11 12 \N \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
17 18 \N \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
2 4 1 \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
2 9 1 \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
19 20 \N \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
19 21 \N \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
28 27 \N \N 2012-05-31 15:01:16.531617+02 2012-05-31 15:01:16.531617+02 1 \N
13 14 \N 1 2011-05-09 10:22:59.313+02 2011-05-09 16:34:44.462776+02 3 1
13 15 \N 1 2011-05-09 10:22:59.313+02 2011-05-09 16:34:44.462776+02 3 2
26 27 \N 1 2008-11-05 09:22:59.313+01 2009-03-23 15:34:44.462776+01 3 1
29 30 \N 1 2011-05-09 10:22:59.313+02 2011-05-09 16:34:44.462776+02 3 1
29 31 \N 1 2011-05-09 10:22:59.313+02 2011-05-09 16:34:44.462776+02 3 2
30 32 \N 1 2011-05-09 10:22:59.313+02 2011-05-09 16:34:44.462776+02 3 1
31 33 \N 1 2011-05-09 10:22:59.313+02 2011-05-09 16:34:44.462776+02 3 1
30 34 \N 1 2011-05-09 10:22:59.313+02 2011-05-09 16:34:44.462776+02 3 1
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1 13 PARENT \N \N 14 20110509092359990-11 1 2011-05-09 16:34:44.462776+02 \N \N
2 13 PARENT \N \N 15 20110509092359990-12 1 2011-05-09 16:34:44.462776+02 \N \N
3 26 PARENT \N \N 27 VALIDATIONS_IMPOS-27 1 2009-03-23 15:34:44.462776+01 \N \N
4 29 PARENT \N \N 30 CONTAINER_1 1 2011-05-09 16:34:44.462776+02 \N \N
5 29 PARENT \N \N 31 CONTAINER_2 1 2011-05-09 16:34:44.462776+02 \N \N
6 30 PARENT \N \N 32 COMPONENT_1A 1 2011-05-09 16:34:44.462776+02 \N \N
7 31 PARENT \N \N 33 COMPONENT_2A 1 2011-05-09 16:34:44.462776+02 \N \N
8 30 PARENT \N \N 34 COMPONENT_1B 1 2011-05-09 16:34:44.462776+02 \N \N
9 14 CHILD \N \N 13 20110509092359990-10 1 2011-05-09 16:34:44.462776+02 \N \N
10 15 CHILD \N \N 13 20110509092359990-10 1 2011-05-09 16:34:44.462776+02 \N \N
11 27 CHILD \N \N 26 VALIDATIONS_CNTNR-26 1 2009-03-23 15:34:44.462776+01 \N \N
12 30 CHILD \N \N 29 ROOT_CONTAINER 1 2011-05-09 16:34:44.462776+02 \N \N
13 31 CHILD \N \N 29 ROOT_CONTAINER 1 2011-05-09 16:34:44.462776+02 \N \N
14 32 CHILD \N \N 30 CONTAINER_1 1 2011-05-09 16:34:44.462776+02 \N \N
15 33 CHILD \N \N 31 CONTAINER_2 1 2011-05-09 16:34:44.462776+02 \N \N
16 34 CHILD \N \N 30 CONTAINER_1 1 2011-05-09 16:34:44.462776+02 \N \N
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1 2 14 t f 2 2009-04-24 14:45:06.348563+02 \N 1 \N t f
2 2 26 f f 2 2009-09-15 08:44:10.351183+02 \N 2 \N t f
3 2 25 f f 2 2009-09-15 08:44:16.365221+02 \N 3 \N t f
4 2 13 f f 2 2009-09-15 08:44:36.342115+02 \N 4 \N t f
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1 UNKNOWN Unknown 2009-03-23 15:34:44.462776+01 \N \N f PHYSICAL \N
2 HCS_IMAGE High Content Screening Image 2009-03-23 15:34:44.462776+01 \N \N f PHYSICAL \N
3 HCS_IMAGE_ANALYSIS_DATA Data derived from analysis of HCS images 2009-03-23 15:34:44.462776+01 \N \N f PHYSICAL \N
4 CONTAINER_TYPE A container (virtual) data set type 2011-05-09 12:24:44.462776+02 \N \N f CONTAINER \N
5 LINK_TYPE A link data set type 2012-06-26 12:24:44.462776+02 \N \N f LINK \N
6 VALIDATED_CONTAINER_TYPE A container test-validated data set type 2011-05-09 12:24:44.462776+02 \N \N f CONTAINER 11
7 VALIDATED_IMPOSSIBLE_TO_UPDATE_TYPE A dataset type impossible to updatea set type 2011-05-09 12:24:44.462776+02 \N \N f PHYSICAL 6
8 VALIDATED_NORMAL_TYPE A regular test-validated type 2011-05-09 12:24:00+02 \N \N f PHYSICAL 11
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